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LOC100911548 SPRY domain-containing SOCS box protein 2-like [ Rattus norvegicus (Norway rat) ]

Gene ID: 100911548, discontinued on 16-Mar-2021

Summary

Symbol
LOC100911548provided by RGD
Full Name
SPRY domain-containing SOCS box protein 2-likeprovided by RGD
Primary source
RGD:6492498
Gene type
protein coding
Organism
Rattus norvegicus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Annotation information
Note: LOC100911548 (GeneID: 100911548) appears to be a duplicate placement of Spsb2 (GeneID: 297592) on Rnor_6.0 (Annot. Release 105) that is absent from Rn_Celera and is not supported by syntenic regions in mouse and human. BLAST analysis of the underlying component AABR07066868.1 against the rat genome shows 88% coverage and 99% identity with NC_005103.4, at the location where Spsb2 is annotated. Annotation of Spsb2 (GeneID: 297592) at this location on Rnor_6.0 is supported by annotation on Rn_Celera and synteny with mouse and human. This apparent duplication could be explained by misassembly of several underlying components on Rnor_6.0. LOC100911548 is bracketed by two genes, Gpr116 and Gpr110, which serve as a useful frame of reference, on the rat reference assembly. The region between these two genes also includes several other genes with names beginning with "LOC". However, on the Celera assembly as well as at the syntenic region in the mouse genome, these "LOC" genes are not annotated between Gpr116 and Gpr110. This suggests that the underlying components for these "LOC" genes could be misassembled in Rnor_6.0, including AABR07066868.1, AABR07066869.1, and AABR07066870.1. [12 Mar 2015]
Expression
Biased expression in Heart (RPKM 408.0), Kidney (RPKM 367.3) and 9 other tissues See more
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Genomic context

See LOC100911548 in Genome Data Viewer
Location:
9q13
Exon count:
4
Annotation release Status Assembly Chr Location
106 latest, but not current Rnor_6.0 (GCF_000001895.5) 9 NC_005108.4 (20217278..20219677, complement)

Genomic regions, transcripts, and products

Genomic Sequence:
NC_005108.4 Chromosome 9 Reference Rnor_6.0 Primary Assembly

Expression

  • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
  • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
  • BioProject: PRJNA238328
  • Publication: PMID 24510058
  • Analysis date: Mon Jun 6 17:44:12 2016

General protein information

Names
SPRY domain-containing SOCS box protein 2-like

NCBI Reference Sequences (RefSeq)

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RefSeqs of Annotated Genomes: Rattus norvegicus Annotation Release 106 (NOTE: not current)

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference Rnor_6.0 Primary Assembly

Genomic

  1. NC_005108.4 Reference Rnor_6.0 Primary Assembly

    Range
    20217278..20219677 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_003750655.4XP_003750703.1  

  2. XM_017596750.1XP_017452239.1  

  3. XM_017596751.1XP_017452240.1